RESEARCH GROUP

DATABASES AND

SOFTWARE ENGINEERING

2021

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• Roman Zoun, Kay Schallert, David Broneske, Ivayla Trifonova, Xiao Chen, Robert Heyer, Dirk Benndorf, and Gunter Saake. An Investigation of Alternatives to Transform Protein Sequence Databases to a Columnar Index Schema. Algorithms, 14(2), 2021.
   

2020

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• Xiao Chen, Nishanth Entoor Venkatarathnam, Kirity Rapuru, David Broneske, Gabriel Campero Durand, Roman Zoun, and Gunter Saake. Analysis and Comparison of Block-Splitting-Based Load Balancing Strategies for Parallel Entity Resolution. In International Conference on Information Integration and Web-based Applications & Services (iiWAS2020), page 446–455. ACM, November 2020.
   
• Marcus Pinnecke, Gabriel Campero, David Broneske, Roman Zoun, and Gunter Saake. GridTables: A One-Size-Fits-Most H2TAP Data Store. Datenbank-Spektrum, Volume 2020/01/31, 2020.
   
• Roman Zoun. Analytic Cloud Platform for Near Real-Time Mass Spectrometry Processing on the Fast Data Architecture. PhD thesis, University of Magdeburg, June 2020.
   

2019

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• Xiao Chen, Yinlong Xu, David Broneske, Gabriel Campero Durand, Roman Zoun, and Gunter Saake. Heterogeneous Committee-Based Active Learning for Entity Resolution (HeALER). In European Conference on Advances in Databases and Information Systems (ADBIS), LNCS, pages 69–85, September 2019.
   
• Roman Zoun, Kay Schallert, David Broneske, Ivayla Trifonova, Xiao Chen, Robert Heyer, Dirk Benndorf, and Gunter Saake. Efficient Transformation of Protein Sequence Databases to Columnar Index Schema. In International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD-DEXA), volume 1062 of CCIS, pages 67–72. IEEE, August 2019.
   
• Robert Heyer, Kay Schallert, Corina Siewert, Fabian Kohrs, J. Greve, I. Maus, J. Klang, M. Klocke, M. Heiermann, M. Hoffmann, S. Puettker, M. Calusinska, Roman Zoun, Gunter Saake, Dirk Benndorf, and Udo Reichl. Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome, 7(1):69, April 2019.
   
• Xiao Chen, Gabriel Campero Durand, Roman Zoun, David Broneske, Yang Li, and Gunter Saake. The Best of Both Worlds: Combining Hand-Tuned and Word-Embedding-Based Similarity Measures for Entity Resolution. In Datenbanksysteme für Business, Technologie und Web, pages 215 – 224, March 2019.
   
• Roman Zoun, Kay Schallert, David Broneske, Wolfram Fenske, Marcus Pinnecke, Robert Heyer, Sven Brehmer, Dirk Benndorf, and Gunter Saake. MSDataStream - Connecting a Bruker Mass Spectrometer to the Internet. In Datenbanksysteme für Business, Technologie und Web, pages 507 – 510. Gesellschaft für Informatik, March 2019.
   
• Marcus Pinnecke, Gabriel Campero, Roman Zoun, David Broneske, and Gunter Saake. Protobase: It’s About Time for Backend/Database Co-Design. In Holger Meyer, Norbert Ritter, Andreas Thor, Daniela Nicklas, Andreas Heuer, and Meike Klettke, editors, BTW 2019 – Workshopband, volume P-289 of Lecture Notes in Informatics (LNI), pages 515–518. Gesellschaft für Informatik, March 2019.
   
• Marcus Pinnecke, Gabriel Campero, Roman Zoun, David Broneske, and Gunter Saake. Protobase: It's About Time for Backend/Database Co-Design. In Datenbanksysteme für Business, Technologie und Web (BTW), pages 515–518, 2019.
   
• Robert heyer, Kay Schallert, Anja Buedel, Roman Zoun, Sebastian Dorl, Alexander Behne, Fabian Kohrs, Sebastian Puettker, Corina Siewert, Thilo Muth, Gunter Saake, Udo Reichl, and Dirk Benndorf. A robust and universal metaproteomics workflow for research studies and routine diagnostics within 24 hours using phenol extraction, FASP digest and the MetaProteomeAnalyzer. Frontiers in Microbiology, Volume 10 1883, 2019.
   
• Roman Zoun, Kay Schallert, David Broneske, Sören Falkenberg, Robert Heyer, Sabine Wehnert, Sven Brehmer, Dirk Benndorf, and Gunter Saake. MStream: Proof of Concept of an Analytic Cloud Platform for Near-Real-Time Diagnostics using Mass Spectrometry Data. 002-2019, Otto-von-Guericke-University Magdeburg, 2019.
   

2018

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• Roman Zoun, Gabriel Campero Durand, Kay Schallert, Apoorva Patrikar, David Broneske, Wolfram Fenske, Robert Heyer, Dirk Benndorf, and Gunter Saake. Protein Identification as a Suitable Application for Fast Data Architecture. In International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD-DEXA), pages 168 – 178. IEEE, September 2018.
   
• Roman Zoun, Kay Schallert, Atin Janki, Rohith Ravindran, Gabriel Campero Durand, Wolfram Fenske, David Broneske, Robert Heyer, Dirk Benndorf, and Gunter Saake. Streaming FDR Calculation for Protein Identication. In Advances in Databases and Information Systems, pages 80 – 87, September 2018.
   
• Xiao Chen, Roman Zoun, Eike Schallehn, Sravani Mantha, Kirity Rapuru, and Gunter Saake. Exploring Spark-SQL-Based Entity Resolution Using the Persistence Capability. In Beyond Databases, Architectures and Structures, pages 3–17, September 2018.
   
• Atin Janki, Roman Zoun, Kay Schallert, Rohith Ravindran, David Broneske, Wolfram Fenske, Robert Heyer, Dirk Benndorf, and Gunter Saake. Connecting X! Tandem to a Database Management System. In GI-Workshop Grundlagen von Datenbanken, GvDB, pages 77–82, May 2018.
   
• Roman Zoun. Internet of Metaproteomics - Optimizing the Metaproteomics Workflow Using Fast Data on the SMACK Stack. IEEE International Conference on Data Engineering, 2018.
   

2017

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• Robert Heyer, Kay Schallert, Roman Zoun, Beatrice Becher, Gunter Saake, and Dirk Benndorf. Challenges and perspectives of metaproteomic data analysis.. Journal of biotechnology, Number 261, pages 24–36, 11 2017.
   
• Roman Zoun, Kay Schallert, David Broneske, Robert Heyer, Dirk Benndorf, and Gunter Saake. Interactive Chord Visualization for Metaproteomics. In International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD-DEXA). IEEE, 2017. www.dxdoi.org/10.1109/DEXA.2017.32.